You're close in your layered theory, but not quite...:
1) Size of stage. Frame dimensions/aspect ratio. Pick it and stick to it, every frame, have it drawn in. You'll learn in time how to hang them together, create longer or shots with a lot of motion. Number all of your boards too.
2) Shot type. From ECU to ELS... extreme close-up to long shot. Learn where the cut off points on people are for your shot selection.
3) Eye line/height of horizon. Are we even with our char, above them? below them?
4) Lens selection. What do different lenses do to your scene? Can you quickly show why someone'd choose a 24, 50, 75mm or greater...? Study depth of field.
5) Camera/actor movements... what are they, and actor blocking? How do you move the camera, literally. Pan, tilt, dolly, track, zoom... indicate in your scene... if you're going to use arrows to show cam or actor or element motion (ugh) learn to do it right.
6) Line of action/180. Get to know the 180 rule and when to break and not to break it. How can you break it 'safely'? What happens going from outdoors to in? In a car? At a dinner table with multiple guests...?
All of the above serve the emotion of the shot, all of the technical falls into place when you know the purpose of the shot/sequence.
As for how you make them, who the hell cares? If you don't have someone dictating that, just grab a ream of paper and a box of pencils: easiest, fastest, cheapest.